PrecisionFDA
Truth Challenge
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Explore HG002 comparison results
Use this interactive explorer to filter all results across submission entries and multiple dimensions.
| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
38251-38300 / 86044 show all | |||||||||||||||
| ckim-isaac | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 83.4617 | 73.6541 | 96.2825 | 47.7670 | 2572 | 920 | 2590 | 100 | 75 | 75.0000 | |
| gduggal-snapfb | INDEL | D6_15 | map_l125_m2_e0 | * | 83.4615 | 75.3968 | 93.4579 | 84.7795 | 95 | 31 | 100 | 7 | 6 | 85.7143 | |
| anovak-vg | INDEL | D1_5 | map_l125_m2_e1 | * | 83.4613 | 85.4797 | 81.5359 | 87.6226 | 989 | 168 | 998 | 226 | 83 | 36.7257 | |
| qzeng-custom | SNP | ti | map_l125_m2_e1 | homalt | 83.4603 | 71.9759 | 99.3054 | 66.9858 | 8247 | 3211 | 8149 | 57 | 56 | 98.2456 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 83.4557 | 90.3376 | 77.5481 | 56.6986 | 2141 | 229 | 2138 | 619 | 618 | 99.8384 | |
| ciseli-custom | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 83.4518 | 96.9037 | 73.2793 | 50.2099 | 11079 | 354 | 11126 | 4057 | 61 | 1.5036 | |
| gduggal-bwavard | SNP | * | HG002compoundhet | het | 83.4515 | 85.5762 | 81.4296 | 49.6147 | 12133 | 2045 | 13203 | 3011 | 2546 | 84.5566 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 83.4511 | 77.1464 | 90.8779 | 45.5977 | 1860 | 551 | 1853 | 186 | 163 | 87.6344 | |
| gduggal-bwaplat | INDEL | * | map_l100_m2_e0 | het | 83.4500 | 72.3450 | 98.5824 | 93.3707 | 1669 | 638 | 1669 | 24 | 8 | 33.3333 | |
| jpowers-varprowl | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 83.4460 | 89.1304 | 78.4431 | 93.1585 | 246 | 30 | 262 | 72 | 4 | 5.5556 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 83.4407 | 85.5319 | 81.4493 | 59.0504 | 1206 | 204 | 1124 | 256 | 208 | 81.2500 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 83.4392 | 72.4958 | 98.2739 | 64.9314 | 854 | 324 | 854 | 15 | 14 | 93.3333 | |
| mlin-fermikit | SNP | ti | map_siren | het | 83.4382 | 72.0464 | 99.1091 | 46.3223 | 44944 | 17438 | 44944 | 404 | 15 | 3.7129 | |
| gduggal-bwavard | INDEL | * | map_l150_m0_e0 | het | 83.4371 | 98.2405 | 72.5108 | 94.3348 | 335 | 6 | 335 | 127 | 22 | 17.3228 | |
| anovak-vg | INDEL | D6_15 | map_siren | homalt | 83.4332 | 77.6923 | 90.0901 | 82.2967 | 101 | 29 | 100 | 11 | 10 | 90.9091 | |
| ckim-gatk | SNP | ti | map_l100_m0_e0 | * | 83.4318 | 72.5369 | 98.1781 | 82.8871 | 15792 | 5979 | 15789 | 293 | 37 | 12.6280 | |
| raldana-dualsentieon | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 83.4286 | 71.5686 | 100.0000 | 93.4470 | 73 | 29 | 73 | 0 | 0 | ||
| ckim-gatk | SNP | tv | map_l125_m1_e0 | * | 83.4275 | 73.1269 | 97.1059 | 85.2195 | 11712 | 4304 | 11710 | 349 | 14 | 4.0115 | |
| qzeng-custom | INDEL | D1_5 | map_l250_m0_e0 | * | 83.4242 | 73.9130 | 95.7447 | 98.9135 | 34 | 12 | 45 | 2 | 2 | 100.0000 | |
| anovak-vg | SNP | tv | map_l100_m1_e0 | * | 83.4211 | 89.3066 | 78.2634 | 70.1430 | 21881 | 2620 | 21848 | 6068 | 1313 | 21.6381 | |
| anovak-vg | INDEL | D1_5 | map_l125_m2_e0 | * | 83.4201 | 85.3893 | 81.5397 | 87.6090 | 976 | 167 | 985 | 223 | 82 | 36.7713 | |
| qzeng-custom | INDEL | I16_PLUS | * | * | 83.4199 | 82.9387 | 83.9068 | 61.2425 | 5289 | 1088 | 5292 | 1015 | 362 | 35.6650 | |
| ghariani-varprowl | SNP | tv | lowcmp_SimpleRepeat_quadTR_51to200 | het | 83.4123 | 88.8889 | 78.5714 | 91.6667 | 32 | 4 | 33 | 9 | 0 | 0.0000 | |
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 83.4117 | 71.7452 | 99.6094 | 51.7891 | 259 | 102 | 255 | 1 | 1 | 100.0000 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 83.4101 | 90.0498 | 77.6824 | 80.0684 | 181 | 20 | 181 | 52 | 41 | 78.8462 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | het | 83.4086 | 85.9259 | 81.0345 | 77.5629 | 116 | 19 | 94 | 22 | 21 | 95.4545 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | het | 83.4086 | 85.9259 | 81.0345 | 77.7778 | 116 | 19 | 94 | 22 | 21 | 95.4545 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | het | 83.4086 | 85.9259 | 81.0345 | 77.7778 | 116 | 19 | 94 | 22 | 21 | 95.4545 | |
| gduggal-snapplat | INDEL | I1_5 | map_l100_m0_e0 | * | 83.4049 | 79.9263 | 87.2000 | 93.3581 | 434 | 109 | 436 | 64 | 4 | 6.2500 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 83.4019 | 71.9604 | 99.1696 | 43.2419 | 3344 | 1303 | 3344 | 28 | 26 | 92.8571 | |
| cchapple-custom | INDEL | D16_PLUS | map_l100_m0_e0 | het | 83.4019 | 84.2105 | 82.6087 | 94.8081 | 16 | 3 | 19 | 4 | 0 | 0.0000 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 83.4015 | 72.2892 | 98.5507 | 28.8660 | 60 | 23 | 68 | 1 | 1 | 100.0000 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 83.4015 | 72.2892 | 98.5507 | 28.8660 | 60 | 23 | 68 | 1 | 1 | 100.0000 | |
| gduggal-snapfb | SNP | * | HG002compoundhet | * | 83.3987 | 98.0094 | 72.5790 | 48.5976 | 25308 | 514 | 25579 | 9664 | 581 | 6.0120 | |
| jmaeng-gatk | SNP | tv | map_l150_m1_e0 | het | 83.3948 | 74.0426 | 95.4512 | 90.5818 | 5143 | 1803 | 5141 | 245 | 6 | 2.4490 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 83.3906 | 75.6757 | 92.8571 | 77.4194 | 28 | 9 | 39 | 3 | 3 | 100.0000 | |
| jmaeng-gatk | SNP | ti | map_l100_m0_e0 | * | 83.3904 | 72.5047 | 98.1224 | 83.1489 | 15785 | 5986 | 15782 | 302 | 37 | 12.2517 | |
| qzeng-custom | INDEL | D6_15 | map_l150_m2_e0 | het | 83.3884 | 80.4348 | 86.5672 | 94.7368 | 37 | 9 | 58 | 9 | 3 | 33.3333 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 83.3771 | 73.0169 | 97.1633 | 50.4684 | 6784 | 2507 | 6782 | 198 | 196 | 98.9899 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 83.3771 | 73.0169 | 97.1633 | 50.4684 | 6784 | 2507 | 6782 | 198 | 196 | 98.9899 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 83.3739 | 71.9097 | 99.1866 | 76.8457 | 4270 | 1668 | 4268 | 35 | 33 | 94.2857 | |
| gduggal-bwaplat | INDEL | D6_15 | map_siren | het | 83.3667 | 74.2857 | 94.9772 | 93.5455 | 208 | 72 | 208 | 11 | 3 | 27.2727 | |
| ndellapenna-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 83.3649 | 82.7068 | 84.0336 | 84.5855 | 110 | 23 | 100 | 19 | 10 | 52.6316 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 83.3645 | 86.4174 | 80.5198 | 60.1495 | 2774 | 436 | 3005 | 727 | 352 | 48.4182 | |
| mlin-fermikit | SNP | * | map_siren | * | 83.3638 | 74.6157 | 94.4357 | 47.0930 | 109109 | 37119 | 109094 | 6428 | 5503 | 85.6098 | |
| gduggal-snapvard | INDEL | I1_5 | map_l250_m1_e0 | * | 83.3611 | 92.4528 | 75.8974 | 95.7498 | 98 | 8 | 148 | 47 | 13 | 27.6596 | |
| ckim-isaac | INDEL | D6_15 | HG002complexvar | het | 83.3579 | 80.6410 | 86.2642 | 49.0301 | 2516 | 604 | 1972 | 314 | 100 | 31.8471 | |
| jpowers-varprowl | SNP | tv | HG002compoundhet | homalt | 83.3558 | 99.8524 | 71.5372 | 51.1753 | 3383 | 5 | 3388 | 1348 | 1126 | 83.5312 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | het | 83.3504 | 84.7561 | 81.9905 | 78.4033 | 139 | 25 | 173 | 38 | 34 | 89.4737 | |
| gduggal-bwavard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 83.3458 | 88.4259 | 78.8177 | 87.4581 | 1146 | 150 | 1120 | 301 | 76 | 25.2492 | |